Reference Code backup Executable files
Calculate the distributions of inserted nucleotides across reads.
insertion_profile.py -s "PE" -i test.bam -o out
--version | show program’s version number and exit |
-h, --help | show this help message and exit |
-i INPUT_FILE, --input-file=INPUT_FILE | |
Alignment file in BAM or SAM format. | |
-o OUTPUT_PREFIX, --out-prefix=OUTPUT_PREFIX | |
Prefix of output files(s). | |
-q MAP_QUAL, --mapq=MAP_QUAL | |
Minimum mapping quality (phred scaled) for an alignment to be considered as “uniquely mapped”. default=30 | |
-s LAYOUT, --sequencing=LAYOUT | |
Sequencing layout. “SE”(single-end) or “PE”(pair-end). |